Deep learning assisted identification of tissue-specific regulatory components in the Andropogoneae

Taylor H. Ferebee, Travis Wrightsman, Jingjing Zhai, Charlie Hale, Merritt Burch, Cinta Romay, Edward S. Buckler, Michelle Stitzer

Extensive genome evolution distinguishes maize within a stable tribe of grasses

Michelle C. Stitzer, Arun S. Seetharam, Armin Scheben, Sheng-Kai Hsu, Aimee J. Schulz, Taylor M. Aubuchon-Elder, Mohamed El-Walid, Taylor H. Ferebee, Charles O. Hale, Thuy La, Zong-Yan Liu, Sarah J. McMorrow, P. Minx, Alyssa R. Phillips, Michael L. Syring, Travis Wrightsman, Jingjing Zhai, Rémy Pasquet, C. McAllister, S. Malcomber, P. Traiperm, D. Layton, Jinshun Zhong, D. Costich, R. Dawe, K. Fengler, Charlotte Harris, Zach Irelan, V. Llaca, P. Parakkal, Gina Zastrow-Hayes, M. Woodhouse, Ethalinda K. S. Cannon, J. Portwood, Carson M. Andorf, Patrice S. Albert, J. Birchler, Adam Siepel, J. Ross-Ibarra, M. Romay, Elizabeth A. Kellogg, E. Buckler, M. Hufford

bioRxiv, 2025

Current genomic deep learning architectures generalize across grass species but not alleles

Travis Wrightsman, Taylor H. Ferebee, M. Romay, Arun S. Seetharam, Taylor M. Aubuchon-Elder, Alyssa R. Phillips, Michael L. Syring, M. Hufford, Elizabeth A. Kellogg, E. Buckler

bioRxiv, 2024

Fishing for a reelGene: evaluating gene models with evolution and machine learning

Aimee J. Schulz, Jingjing Zhai, Taylor M. Aubuchon-Elder, Mohamed El-Walid, Taylor H. Ferebee, Elizabeth H Gilmore, M. Hufford, Lynn Johnson, Elizabeth A. Kellogg, T. La, Evan M Long, Zachary R. Miller, M. Romay, Arun S. Seetharam, Michelle C. Stitzer, Travis Wrightsman, E. Buckler, B. Monier, Sheng‐Kai Hsu

bioRxiv, 2023

Exploring the utility of regulatory network-based machine learning for gene expression prediction in maize

Taylor H. Ferebee, Edward S. Buckler

bioRxiv, 2023 May 14

Ten simple rules for creating a global network in computational biology

Jenea Imani Adams, Taylor Ferebee, M. Minto, K. Pennerman, N. Chambwe

PLoS Computational Biology, 2022

Elucidating the patterns of pleiotropy and its biological relevance in maize

Merritt Khaipho-Burch, Taylor Ferebee, Anju Giri, Guillaume P. Ramstein, B. Monier, Emily Yi, M. Romay, E. Buckler

bioRxiv, 2022

The role of transposon inverted repeats in balancing drought tolerance and yield-related traits in maize

Xiaopeng Sun, Yanli Xiang, Nannan Dou, Hui Zhang, Surui Pei, Arcadio Valdes Franco, Mitra Menon, Brandon Monier, Taylor Ferebee, Tao Liu, Sanyang Liu, Yuchi Gao, Jubin Wang, William Terzaghi, Jianbing Yan, Sarah Hearne, Lin Li, Feng Li, Mingqiu Dai

Nature Biotechnology, 2022, pp. 1-8

Changing from Genes to Cleats: An Overview of Sports Genomics' Future in Analytics

T. Ferebee

2019